Locus 7890

Sequence ID	3R_DroMel_CAF1
Location	21,138,807 – 21,138,923
Length	116
Max. P	0.969951

overview

Window 6

Location	21,138,807 – 21,138,923
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.61
Mean single sequence MFE	-27.41
Consensus MFE	-16.32
Energy contribution	-18.16
Covariance contribution	1.84
Combinations/Pair	1.16
Mean z-score	-2.47
Structure conservation index	0.60
SVM decision value	1.65
SVM RNA-class probability	0.969951
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21138807 116 + 27905053
AUAUGUGGCACUUCUUU--UAUUCCACACUUGGAAAAGUCAGUAAGCAUAUGACUCAAGCUAAUACUUAGAAGUGCUAAUGCCACUCUCAAGUGUU--UUCUUCGAUACUUGAGAAGAGU
.....((((((((((..--..(((((....))))).(((((.........))))).............)))))))))).......(((((((((((--......)))))))))))..... ( -34.30)
>DroSec_CAF1 3060 118 + 1
AUAUGUGGCACUUCUUU--UAUUUCACACUUAAAAAAGUCAGUAAGCUUAUGACUCAAGCUAAUACUUAAAACUGCUAAUGCCACUCUCAAGUGUUUUUUCUUCGAUACUUGAGAAGAGU
....(((((((((.(((--((.........))))))))).(((((((((.......)))))..)))).............)))))(((((((((((........)))))))))))..... ( -27.60)
>DroSim_CAF1 2802 118 + 1
AUAUGCGGCACUUCUUU--UAUUUCACACUUAAAAAAGUCAGUAAGCGUAUGACUCAAGCUAAUUCUUAAAAUUGCUAAUGCCACUCUCAAGUGUUUUUUCUUCGAUACUUGAGAAGAGU
((((((...(((.((((--(.............)))))..)))..)))))).((((.(((.((((.....)))))))........(((((((((((........))))))))))).)))) ( -25.72)
>DroEre_CAF1 3104 114 + 1
AUAUGUGGACCUUCAACUCAAUUCCACAGUGAUCU----CAAUAGAACUAUGACUCAAGCUAACACUCAGAACUGCUAAUGGCACCCUCAAGUGUU--UUCUUCAAUACUUGAAGAGAAU
...((((((.............))))))....(((----(..................((((.....((....))....))))....(((((((((--......))))))))).)))).. ( -21.52)
>DroYak_CAF1 3751 116 + 1
AUUUGUGGAACUUUUCU--UAUUCCCCAGUAAGAAAAACAAGUAGGGCUAUGACUCAAGCUAAUACUCAGAGCUGCUUAAGCCACUUUCAAGUGUU--UUCCUUAAUACUUGAGGAGAAU
....((((...((((((--(((......)))))))))..((((((((((........))))...........))))))...))))(((((((((((--......)))))))))))..... ( -27.90)
>consensus
AUAUGUGGCACUUCUUU__UAUUCCACACUUAAAAAAGUCAGUAAGCCUAUGACUCAAGCUAAUACUUAGAACUGCUAAUGCCACUCUCAAGUGUU__UUCUUCGAUACUUGAGAAGAGU
....((((((..........................(((((.........)))))..(((..............)))..))))))(((((((((((........)))))))))))..... (-16.32 = -18.16 +   1.84)

alignment

secondary structure

dotplot

Window 7

Location	21,138,807 – 21,138,923
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.61
Mean single sequence MFE	-29.18
Consensus MFE	-18.11
Energy contribution	-18.55
Covariance contribution	0.44
Combinations/Pair	1.31
Mean z-score	-2.18
Structure conservation index	0.62
SVM decision value	1.14
SVM RNA-class probability	0.920979
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21138807 116 - 27905053
ACUCUUCUCAAGUAUCGAAGAA--AACACUUGAGAGUGGCAUUAGCACUUCUAAGUAUUAGCUUGAGUCAUAUGCUUACUGACUUUUCCAAGUGUGGAAUA--AAAGAAGUGCCACAUAU
.....((((((((.........--...))))))))(((((......((((((...((((.((((((((((((....)).)))))....)))))....))))--..))))))))))).... ( -30.60)
>DroSec_CAF1 3060 118 - 1
ACUCUUCUCAAGUAUCGAAGAAAAAACACUUGAGAGUGGCAUUAGCAGUUUUAAGUAUUAGCUUGAGUCAUAAGCUUACUGACUUUUUUAAGUGUGAAAUA--AAAGAAGUGCCACAUAU
.....((((((((..............))))))))((((((((....((((((((((..((((((.....)))))))))).((((....)))).)))))).--.....)))))))).... ( -28.64)
>DroSim_CAF1 2802 118 - 1
ACUCUUCUCAAGUAUCGAAGAAAAAACACUUGAGAGUGGCAUUAGCAAUUUUAAGAAUUAGCUUGAGUCAUACGCUUACUGACUUUUUUAAGUGUGAAAUA--AAAGAAGUGCCGCAUAU
.....((((((((..............))))))))((((((((......((((((......))))))...((((((((..........)))))))).....--.....)))))))).... ( -28.44)
>DroEre_CAF1 3104 114 - 1
AUUCUCUUCAAGUAUUGAAGAA--AACACUUGAGGGUGCCAUUAGCAGUUCUGAGUGUUAGCUUGAGUCAUAGUUCUAUUG----AGAUCACUGUGGAAUUGAGUUGAAGGUCCACAUAU
....((((((((.(((.(((..--((((((((..(.(((.....))).)..))))))))..))).)))).(((((((((((----....))..)))))))))..)))))))......... ( -29.40)
>DroYak_CAF1 3751 116 - 1
AUUCUCCUCAAGUAUUAAGGAA--AACACUUGAAAGUGGCUUAAGCAGCUCUGAGUAUUAGCUUGAGUCAUAGCCCUACUUGUUUUUCUUACUGGGGAAUA--AGAAAAGUUCCACAAAU
....((((((.(((...(((((--((((.......(((((((((((..............))))))))))).........))))))))))))))))))...--................. ( -28.83)
>consensus
ACUCUUCUCAAGUAUCGAAGAA__AACACUUGAGAGUGGCAUUAGCAGUUCUAAGUAUUAGCUUGAGUCAUAGGCUUACUGACUUUUCUAAGUGUGGAAUA__AAAGAAGUGCCACAUAU
.....((((((((..............))))))))((((((((.....(((.((((....)))))))((((((..................))))))...........)))))))).... (-18.11 = -18.55 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:17 2006